9Q9U | pdb_00009q9u

X ray Structure of the Superantigen Staphylococcal Enterotoxin L (SEL)

PDB DOI: https://doi.org/10.2210/pdb9Q9U/pdb

Classification: TOXIN
Organism(s): Staphylococcus aureus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-02-26 Released: 2026-01-28
Deposition Author(s): Marino, S.F.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.31 Å
R-Value Free:
0.160 (Depositor), 0.160 (DCC)
R-Value Work:
0.123 (Depositor), 0.124 (DCC)
R-Value Observed:
0.124 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Identification of targetable epitope surfaces from the high resolution structure of the superantigen Staphylococcal enterotoxin L

Klamm, E., Curato, C., Siewert, K., Marino, S.F.

(2026) Sci Rep 16: 17840

DOI: https://doi.org/10.1038/s41598-026-54870-w

Macromolecule Content

Total Structure Weight: 26.56 kDa
Atom Count: 1,894
Modeled Residue Count: 215
Deposited Residue Count: 231
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Extracellular enterotoxin L	A	231	Staphylococcus aureus	Mutation(s): 0 Gene Names: sel, sei_1, M1K003_1711, NCTC7972_01537, SAMEA1466929_01817
UniProt
Find proteins for Q9F0L7 (Staphylococcus aureus) Explore Q9F0L7 Go to UniProtKB: Q9F0L7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9F0L7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.31 Å
R-Value Free: 0.160 (Depositor), 0.160 (DCC)
R-Value Work: 0.123 (Depositor), 0.124 (DCC)
R-Value Observed: 0.124 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.3	α = 90
b = 63.86	β = 92.33
c = 48.62	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-01-28

Deposition Author(s):

Funding Organization	Location	Grant Number
Other government	Germany	BfR-BIOS-23-1322-839

Revision History (Full details and data files)

Version 1.0: 2026-01-28
Type: Initial release
Version 1.1: 2026-06-17
Changes: Database references

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.